Locus 4752

Sequence ID dm3.chr2R
Location 15,485,233 – 15,485,299
Length 66
Max. P 0.550069
window6519 window6520

overview

Window 9

Location 15,485,233 – 15,485,299
Length 66
Sequences 5
Columns 66
Reading direction forward
Mean pairwise identity 97.58
Shannon entropy 0.04375
G+C content 0.56061
Mean single sequence MFE -18.48
Consensus MFE -17.68
Energy contribution -18.08
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.10
Structure conservation index 0.96
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.11
SVM RNA-class probability 0.550069
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 15485233 66 + 21146708
GCAAUGGAACACCCGUUCCGCCCACCUAACCCGUUGGCUUUUGCCAGGCUAUGCAUUAUGGUCUGC
((((.(((((....)))))(((.((.......)).)))..))))(((((((((...))))))))). ( -21.50, z-score =  -1.99, R)
>droEre2.scaffold_4845 9687140 66 + 22589142
GCAAUGAAACACCCGCUCCGCCCACCUAACUCGUUGGCUUUUGCCAGGCUACGCAUUAUGGUCUGC
..............((...(((.((.......)).)))....))(((((((.......))))))). ( -11.50, z-score =   1.12, R)
>droYak2.chr2R 7452683 66 - 21139217
GCAAUGGAACACCCGUUCCGCCCACCUAACUCGUUGGCUUUUGCCAGGCUACGCAUUAUGGUCUGC
((((.(((((....)))))(((.((.......)).)))..))))(((((((.......))))))). ( -19.80, z-score =  -1.54, R)
>droSec1.super_1 13004260 66 + 14215200
GCAAUGGAACACCCGUUCCGCCCACCUAACUCGUUGGCUUUUGCCAGGCUACGCAUUAUGGUCUGC
((((.(((((....)))))(((.((.......)).)))..))))(((((((.......))))))). ( -19.80, z-score =  -1.54, R)
>droSim1.chr2R 14191868 66 + 19596830
GCAAUGGAACACCCGUUCCGCCCACCUAACUCGUUGGCUUUUGCCAGGCUACGCAUUAUGGUCUGC
((((.(((((....)))))(((.((.......)).)))..))))(((((((.......))))))). ( -19.80, z-score =  -1.54, R)
>consensus
GCAAUGGAACACCCGUUCCGCCCACCUAACUCGUUGGCUUUUGCCAGGCUACGCAUUAUGGUCUGC
((((.(((((....)))))(((.((.......)).)))..))))(((((((.......))))))). (-17.68 = -18.08 +   0.40)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 0

Location 15,485,233 – 15,485,299
Length 66
Sequences 5
Columns 66
Reading direction reverse
Mean pairwise identity 97.58
Shannon entropy 0.04375
G+C content 0.56061
Mean single sequence MFE -21.38
Consensus MFE -21.04
Energy contribution -20.92
Covariance contribution -0.12
Combinations/Pair 1.10
Mean z-score -0.90
Structure conservation index 0.98
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.03
SVM RNA-class probability 0.510854
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 15485233 66 - 21146708
GCAGACCAUAAUGCAUAGCCUGGCAAAAGCCAACGGGUUAGGUGGGCGGAACGGGUGUUCCAUUGC
((((.((((......(((((((((....)))...)))))).))))..(((((....))))).)))) ( -21.80, z-score =  -0.90, R)
>droEre2.scaffold_4845 9687140 66 - 22589142
GCAGACCAUAAUGCGUAGCCUGGCAAAAGCCAACGAGUUAGGUGGGCGGAGCGGGUGUUUCAUUGC
((..(((.((((.(((....((((....))))))).)))))))..))(((((....)))))..... ( -19.10, z-score =  -0.14, R)
>droYak2.chr2R 7452683 66 + 21139217
GCAGACCAUAAUGCGUAGCCUGGCAAAAGCCAACGAGUUAGGUGGGCGGAACGGGUGUUCCAUUGC
((..(((.((((.(((....((((....))))))).)))))))..))(((((....)))))..... ( -22.00, z-score =  -1.15, R)
>droSec1.super_1 13004260 66 - 14215200
GCAGACCAUAAUGCGUAGCCUGGCAAAAGCCAACGAGUUAGGUGGGCGGAACGGGUGUUCCAUUGC
((..(((.((((.(((....((((....))))))).)))))))..))(((((....)))))..... ( -22.00, z-score =  -1.15, R)
>droSim1.chr2R 14191868 66 - 19596830
GCAGACCAUAAUGCGUAGCCUGGCAAAAGCCAACGAGUUAGGUGGGCGGAACGGGUGUUCCAUUGC
((..(((.((((.(((....((((....))))))).)))))))..))(((((....)))))..... ( -22.00, z-score =  -1.15, R)
>consensus
GCAGACCAUAAUGCGUAGCCUGGCAAAAGCCAACGAGUUAGGUGGGCGGAACGGGUGUUCCAUUGC
((..(((.((((.(((....((((....))))))).)))))))..))(((((....)))))..... (-21.04 = -20.92 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:35:14 2011